If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ), 'gf_id' => 'HOM05D001006', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001006' ), 'data_identifier' => 'HOM05D001006', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001006', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '602', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p17010' => 'bna', 'A07p10950' => 'bna', 'A08p25320' => 'bna', 'A08p34220' => 'bna', 'A10p07940' => 'bna', 'Aa31LG1G4860' => 'aar', 'Aa31LG3G7680' => 'aar', 'Aa31LG6G6410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1531' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2566' => 'aag', 'Actinidia01045' => 'ach', 'Actinidia07638' => 'ach', 'Actinidia10242' => 'ach', 'Actinidia13609' => 'ach', 'Actinidia17325' => 'ach', 'Actinidia19279' => 'ach', 'Actinidia25686' => 'ach', 'Actinidia31670' => 'ach', 'Actinidia31773' => 'ach', 'Actinidia38644' => 'ach', 'Actinidia39503' => 'ach', 'Ah.13g066220' => 'amhyb', 'AL1G20740' => 'aly', 'AL1G42840' => 'aly', 'AL7G27270' => 'aly', 'Aqoxy3G02755' => 'aox', 'Aqoxy4G00365' => 'aox', 'Aqoxy6G01534' => 'aox', 'Aqoxy7G03139' => 'aox', 'arahy.Tifrunner.gnm1.ann1.033PPZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0568A9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9AD5I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CQU168' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D1TJ11' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JD0INC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L7MXX8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QRAR3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.USU7SK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VD4QHY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VNB45H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZCFB2D' => 'arhy', 'AT1G10040' => 'ath', 'AT1G29120' => 'ath', 'AT4G25770' => 'ath', 'AT5G51180' => 'ath', 'ATR0057G050' => 'atr', 'ATR0580G012' => 'atr', 'ATR0602G006' => 'atr', 'ATR0629G032' => 'atr', 'Atru.chr1.915' => 'acertr', 'Atru.chr10.1672' => 'acertr', 'Atru.chr13.903' => 'acertr', 'Atru.chr13.904' => 'acertr', 'Atru.chr7.736' => 'acertr', 'Atru.chr7.737' => 'acertr', 'AUR62002242' => 'cqu', 'AUR62015454' => 'cqu', 'AUR62027672' => 'cqu', 'AUR62031199' => 'cqu', 'AUR62034970' => 'cqu', 'AUR62039992' => 'cqu', 'AUR62040298' => 'cqu', 'AUR62043878' => 'cqu', 'BcaB01g00994' => 'bca', 'BcaB01g02093' => 'bca', 'BcaB01g04326' => 'bca', 'BcaB03g13905' => 'bca', 'BcaB03g15612' => 'bca', 'BcaB05g22319' => 'bca', 'BcaB05g23089' => 'bca', 'BcaB05g24189' => 'bca', 'BcaB05g24325' => 'bca', 'BcaB06g26691' => 'bca', 'BcaB06g28412' => 'bca', 'BcaB06g29639' => 'bca', 'BcaB07g30578' => 'bca', 'BcaB07g31632' => 'bca', 'BcaB07g33834' => 'bca', 'BcaB08g34475' => 'bca', 'BcaB08g35477' => 'bca', 'BcaB08g36602' => 'bca', 'BcaC04g20724' => 'bca', 'BcaC06g35400' => 'bca', 'BcaC07g38563' => 'bca', 'BcaC09g50746' => 'bca', 'BcaNung04115' => 'bca', 'BcaNung06432' => 'bca', 'BcaNung06756' => 'bca', 'BolC1t02056H' => 'bol', 'BolC2t10726H' => 'bol', 'BolC3t19808H' => 'bol', 'BolC4t25418H' => 'bol', 'BolC7t42154H' => 'bol', 'BolC8t48967H' => 'bol', 'BolC9t54832H' => 'bol', 'BolC9t56885H' => 'bol', 'BraA01t01657Z' => 'bra', 'BraA03t12058Z' => 'bra', 'BraA07t28883Z' => 'bra', 'BraA08t34483Z' => 'bra', 'BraA08t35334Z' => 'bra', 'BraSC35t46005Z' => 'bra', 'C01p21330' => 'bna', 'C03p04850' => 'bna', 'C03p75520' => 'bna', 'C04p38420' => 'bna', 'C07p16570' => 'bna', 'C07p32940' => 'bna', 'C08p13370' => 'bna', 'C09p39860' => 'bna', 'CAN.G1181.17' => 'can', 'CAN.G1558.4' => 'can', 'CAN.G247.20' => 'can', 'CAN.G296.12' => 'can', 'CAN.G416.44' => 'can', 'CAN.G584.22' => 'can', 'CANSAT11G2496' => 'cansat', 'CANSAT35G1157' => 'cansat', 'CANSAT56G3401' => 'cansat', 'CANSAT80G1443' => 'cansat', 'CARHR010040' => 'chi', 'CARHR010150' => 'chi', 'CARHR028440' => 'chi', 'CARHR233220' => 'chi', 'CARHR256840' => 'chi', 'Carub.0001s0946' => 'cru', 'Carub.0001s2733' => 'cru', 'Carub.0007s1519' => 'cru', 'Carub.0008s1122' => 'cru', 'Ca_00432_v3' => 'car', 'Ca_12322_v3' => 'car', 'Ca_15563_v3' => 'car', 'Ca_17923_v3' => 'car', 'Ca_17925_v3' => 'car', 'CBR_g953' => 'cbr', 'Cc02_g04710' => 'ccan', 'Cc06_g13610' => 'ccan', 'Cc07_g17290' => 'ccan', 'Cc10_g07900' => 'ccan', 'CDE02G3513' => 'cde', 'CDE07G1366' => 'cde', 'CDE10G0468' => 'cde', 'CDE10G0479' => 'cde', 'CDE10G0951' => 'cde', 'Cfa000604' => 'cfa', 'Cfa013394' => 'cfa', 'Cfa013526' => 'cfa', 'Cfa022695' => 'cfa', 'Cfa026174' => 'cfa', 'Ciclev10001340m.g' => 'ccl', 'Ciclev10005243m.g' => 'ccl', 'Ciclev10005580m.g' => 'ccl', 'Ciclev10008201m.g' => 'ccl', 'Ciclev10015232m.g' => 'ccl', 'CiPaw.07G185200' => 'cil', 'CiPaw.07G189300' => 'cil', 'CiPaw.07G201200' => 'cil', 'CiPaw.08G041500' => 'cil', 'CiPaw.09G069500' => 'cil', 'CiPaw.10G132400' => 'cil', 'ClCG01G004690' => 'cla', 'ClCG03G007740' => 'cla', 'ClCG06G013110' => 'cla', 'ClCG11G014980' => 'cla', 'COL.COLO4_19572' => 'col', 'COL.COLO4_31303' => 'col', 'COL.COLO4_35370' => 'col', 'COL.COLO4_37341' => 'col', 'Cpa.g.sc13.256' => 'cpa', 'Cpa.g.sc160.17' => 'cpa', 'Cpa.g.sc7.48' => 'cpa', 'Cpa.g.sc95.73' => 'cpa', 'Cre04.g219200' => 'cre', 'Cre05.g233850' => 'cre', 'Cre12.g499950' => 'cre', 'Cre14.g615600' => 'cre', 'CsaV3_1G031260' => 'csa', 'CsaV3_1G033360' => 'csa', 'CsaV3_3G048390' => 'csa', 'CsaV3_4G004190' => 'csa', 'CSS0010849' => 'camsi', 'CSS0012871' => 'camsi', 'CSS0021187' => 'camsi', 'CSS0029723' => 'camsi', 'CSS0030582' => 'camsi', 'CSS0033560' => 'camsi', 'CSS0038476' => 'camsi', 'CSS0039360' => 'camsi', 'CSS0050266' => 'camsi', 'DCAR_005224' => 'dca', 'DCAR_007952' => 'dca', 'DCAR_009540' => 'dca', 'DCAR_012310' => 'dca', 'DCAR_017957' => 'dca', 'DCAR_019340' => 'dca', 'DCAR_020041' => 'dca', 'Dinv01225' => 'din', 'Dinv16763' => 'din', 'Dinv16865' => 'din', 'Dinv40672' => 'din', 'Dinv41276' => 'din', 'Dinv42756' => 'din', 'Dinv43346' => 'din', 'Dinv44915' => 'din', 'Duzib068G0475' => 'dzi', 'Duzib084G1087' => 'dzi', 'Duzib116G0936' => 'dzi', 'Duzib168G1112' => 'dzi', 'Duzib192G1009' => 'dzi', 'Duzib205G1749' => 'dzi', 'ECA232G1594' => 'eca', 'ECA233G2066' => 'eca', 'ECA236G2292' => 'eca', 'ECA236G4087' => 'eca', 'ECA238G1446' => 'eca', 'ECA247G0492' => 'eca', 'EL10Ac1g02331' => 'bvu', 'EL10Ac3g05879' => 'bvu', 'EL10Ac8g18264' => 'bvu', 'EL10Ac8g20601' => 'bvu', 'Eucgr.C02420' => 'egr', 'Eucgr.E02746' => 'egr', 'Eucgr.F02203' => 'egr', 'Eucgr.K00129' => 'egr', 'FAN06G0481' => 'fan', 'FAN07G1537' => 'fan', 'FAN11G1243' => 'fan', 'FAN12G4171' => 'fan', 'FAN15G1652' => 'fan', 'FAN16G2621' => 'fan', 'FAN17G0553' => 'fan', 'FAN20G2370' => 'fan', 'FAN21G0739' => 'fan', 'FAN22G2058' => 'fan', 'FAN25G3850' => 'fan', 'FAN27G0337' => 'fan', 'FvH4_2g35100' => 'fve', 'FvH4_3g07820' => 'fve', 'FvH4_4g08890' => 'fve', 'FvH4_7g26960' => 'fve', 'Glyma.01G114050' => 'gma', 'Glyma.04G087400' => 'gma', 'Glyma.04G146800' => 'gma', 'Glyma.05G158000' => 'gma', 'Glyma.06G089100' => 'gma', 'Glyma.06G218100' => 'gma', 'Glyma.08G115700' => 'gma', 'Glyma.10G119200' => 'gma', 'Glyma.20G070200' => 'gma', 'Gohir.1Z049374' => 'ghi', 'Gohir.1Z049474' => 'ghi', 'Gohir.A02G079500' => 'ghi', 'Gohir.A03G059900' => 'ghi', 'Gohir.A05G213400' => 'ghi', 'Gohir.A06G200200' => 'ghi', 'Gohir.A08G086500' => 'ghi', 'Gohir.A12G196600' => 'ghi', 'Gohir.D02G087400' => 'ghi', 'Gohir.D03G106100' => 'ghi', 'Gohir.D05G216800' => 'ghi', 'Gohir.D06G207500' => 'ghi', 'Gohir.D08G095800' => 'ghi', 'Gohir.D12G199000' => 'ghi', 'Gorai.003G112300' => 'gra', 'Gorai.004G101500' => 'gra', 'Gorai.005G098000' => 'gra', 'Gorai.008G214100' => 'gra', 'Gorai.009G223700' => 'gra', 'Gorai.010G241900' => 'gra', 'GSVIVG01009271001' => 'vvi', 'GSVIVG01013965001' => 'vvi', 'GSVIVG01021209001' => 'vvi', 'GSVIVG01029120001' => 'vvi', 'HanXRQChr02g0045981' => 'han', 'HanXRQChr03g0069031' => 'han', 'HanXRQChr05g0136771' => 'han', 'HanXRQChr07g0205551' => 'han', 'HanXRQChr08g0223221' => 'han', 'HanXRQChr11g0343891' => 'han', 'HanXRQChr15g0485471' => 'han', 'Haze_06234' => 'cav', 'Haze_06235' => 'cav', 'Haze_21937' => 'cav', 'Haze_22129' => 'cav', 'Haze_22196' => 'cav', 'Hma1.2p1_0987F.1_g244600' => 'hma', 'Hma1.2p1_1078F.1_g254790' => 'hma', 'Hma1.2p1_1305F.1_g274610' => 'hma', 'Hma1.2p1_1493F.1_g286850' => 'hma', 'Hma1.2p1_1580F.1_g291920' => 'hma', 'HPP92_004051' => 'vpl', 'HPP92_015203' => 'vpl', 'HPP92_018336' => 'vpl', 'HPP92_018377' => 'vpl', 'HPP92_018378' => 'vpl', 'HPP92_024954' => 'vpl', 'HPP92_026517' => 'vpl', 'Hund04564' => 'sun', 'Hund05253' => 'sun', 'Hund11853' => 'sun', 'Hund13322' => 'sun', 'Hund21177' => 'sun', 'Hund23988' => 'sun', 'Hund26367' => 'sun', 'Hund26376' => 'sun', 'Lalb_Chr03g0036541' => 'lal', 'Lalb_Chr07g0186501' => 'lal', 'Lalb_Chr08g0234501' => 'lal', 'Lalb_Chr08g0242851' => 'lal', 'Lalb_Chr11g0072321' => 'lal', 'Lalb_Chr20g0117421' => 'lal', 'Lj1A1193G75' => 'lonja', 'Lj1A976G66' => 'lonja', 'Lj1g0007247' => 'lja', 'Lj2C298T11' => 'lonja', 'Lj4A78T27' => 'lonja', 'Lj4g0002769' => 'lja', 'Lj4g0009769' => 'lja', 'Lj6g0003414' => 'lja', 'Lj6g0008780' => 'lja', 'Lj6g0027805' => 'lja', 'Lj9A689G38' => 'lonja', 'Lsat_1_v5_gn_1_321' => 'lsa', 'Lsat_1_v5_gn_1_90600' => 'lsa', 'Lsat_1_v5_gn_4_103920' => 'lsa', 'Lsat_1_v5_gn_4_103940' => 'lsa', 'Lsat_1_v5_gn_4_167001' => 'lsa', 'Lsat_1_v5_gn_5_96640' => 'lsa', 'Lsat_1_v5_gn_6_41460' => 'lsa', 'Lsat_1_v5_gn_7_51841' => 'lsa', 'Lsat_1_v5_gn_7_60521' => 'lsa', 'Lsat_1_v5_gn_8_66440' => 'lsa', 'Lsat_1_v5_gn_8_9640' => 'lsa', 'Lsat_1_v5_gn_9_47060' => 'lsa', 'Lsat_1_v5_gn_9_78940' => 'lsa', 'Manes.06G027200' => 'mes', 'Manes.06G131400' => 'mes', 'Manes.14G038700' => 'mes', 'Manes.16G039101' => 'mes', 'Manes.17G055600' => 'mes', 'Manes.18G051900' => 'mes', 'Mapoly0029s0115' => 'mpo', 'Mapoly0060s0043' => 'mpo', 'MBI04_g07211_MAGBIO' => 'mbi', 'MBI05_g31241_MAGBIO' => 'mbi', 'MBI05_g31242_MAGBIO' => 'mbi', 'MBI07_g03179_MAGBIO' => 'mbi', 'MBI14_g39546_MAGBIO' => 'mbi', 'MBI16_g05026_MAGBIO' => 'mbi', 'MBI18_g21801_MAGBIO' => 'mbi', 'MCO03G589' => 'mco', 'MD01G1177400' => 'mdo', 'MD05G1301500' => 'mdo', 'MD07G1249100' => 'mdo', 'MD08G1108500' => 'mdo', 'MD10G1280400' => 'mdo', 'MD13G1265600' => 'mdo', 'MD15G1089000' => 'mdo', 'MD16G1266100' => 'mdo', 'MD16G1266200' => 'mdo', 'Medtr1g040460' => 'mtr', 'Medtr2g015960' => 'mtr', 'Medtr3g110530' => 'mtr', 'Medtr4g128800' => 'mtr', 'Medtr6g005650' => 'mtr', 'Medtr7g405800' => 'mtr', 'Medtr8g086260' => 'mtr', 'MELO3C002648.2' => 'cme', 'MELO3C003480.2' => 'cme', 'MELO3C017498.2' => 'cme', 'MELO3C017647.2' => 'cme', 'Migut.F00524' => 'egut', 'Migut.H01427' => 'egut', 'Migut.J01471' => 'egut', 'Migut.M01040' => 'egut', 'Migut.N02809' => 'egut', 'Migut.O00370' => 'egut', 'MSTRG.14728' => 'ama', 'MSTRG.24398' => 'ama', 'MSTRG.25011' => 'ama', 'MSTRG.27219' => 'ama', 'MSTRG.6195' => 'ama', 'MSTRG.7404' => 'ama', 'MSTRG.8847' => 'ama', 'Nitab4.5_0000165g0140' => 'nta', 'Nitab4.5_0000244g0170' => 'nta', 'Nitab4.5_0000605g0250' => 'nta', 'Nitab4.5_0001212g0120' => 'nta', 'Nitab4.5_0001614g0150' => 'nta', 'Nitab4.5_0002211g0150' => 'nta', 'Nitab4.5_0003173g0020' => 'nta', 'Nitab4.5_0003475g0020' => 'nta', 'Nitab4.5_0006225g0020' => 'nta', 'Nitab4.5_0008009g0010' => 'nta', 'Nitab4.5_0010756g0030' => 'nta', 'Nitab4.5_0012028g0010' => 'nta', 'Nn1g00880' => 'nnu', 'Nn1g09103' => 'nnu', 'Nn1g09134' => 'nnu', 'Nn5g30702' => 'nnu', 'Nn6g33837' => 'nnu', 'Nn6g34566' => 'nnu', 'Nn8g40400' => 'nnu', 'Oeu000748.2' => 'oeu', 'Oeu001086.1' => 'oeu', 'Oeu006089.1' => 'oeu', 'Oeu020465.1' => 'oeu', 'Oeu020977.1' => 'oeu', 'Oeu029865.1' => 'oeu', 'Oeu039766.1' => 'oeu', 'Oeu042533.1' => 'oeu', 'Oeu043107.1' => 'oeu', 'Oeu044195.1' => 'oeu', 'Os02g0655600' => 'osa', 'Os02g0787100' => 'osa', 'Os03g0726800' => 'osa', 'Os06g0154400' => 'osa', 'Os08g0143700' => 'osa', 'Os08g0447300' => 'osa', 'Peaxi162Scf00167g00810' => 'pax', 'Peaxi162Scf00271g00614' => 'pax', 'Peaxi162Scf00628g00412' => 'pax', 'Peaxi162Scf00942g00119' => 'pax', 'Peaxi162Scf01050g00232' => 'pax', 'Peaxi162Scf01479g00013' => 'pax', 'PGR042G0921' => 'pgr', 'PGR102G0578' => 'pgr', 'PGR142G2161' => 'pgr', 'PGSC0003DMG400004933' => 'stu', 'PGSC0003DMG400010748' => 'stu', 'PGSC0003DMG400026888' => 'stu', 'PGSC0003DMG400027478' => 'stu', 'PGSC0003DMG401010200' => 'stu', 'PGSC0003DMG402010200' => 'stu', 'Phvul.002G238200' => 'pvu', 'Phvul.007G241900' => 'pvu', 'Phvul.009G113000' => 'pvu', 'Phvul.009G206000' => 'pvu', 'Potri.001G079400' => 'ptr', 'Potri.002G113000' => 'ptr', 'Potri.003G151300' => 'ptr', 'Potri.011G065700' => 'ptr', 'Potri.018G096035' => 'ptr', 'Pp3c10_11180' => 'ppa', 'Pp3c1_24980' => 'ppa', 'Pp3c26_2130' => 'ppa', 'Pp3c7_2940' => 'ppa', 'PRCOL_00003114' => 'pco', 'Prupe.1G091600' => 'ppe', 'Prupe.1G443100' => 'ppe', 'Prupe.2G272700' => 'ppe', 'Prupe.4G060900' => 'ppe', 'Psat0ss9363g0240' => 'psa', 'Psat1g023800' => 'psa', 'Psat1g023840' => 'psa', 'Psat1g198240' => 'psa', 'Psat5g020080' => 'psa', 'Psat6g049800' => 'psa', 'Psat7g071640' => 'psa', 'PSO063G5901' => 'pso', 'PSO063G5923' => 'pso', 'PSO063G6852' => 'pso', 'PSO541G6408' => 'pso', 'PSO675G6159' => 'pso', 'PSO782G2365' => 'pso', 'PSO782G2856' => 'pso', 'QL02p096914' => 'qlo', 'QL05p047026' => 'qlo', 'QL09p027977' => 'qlo', 'QL12p040788' => 'qlo', 'QL12p040803' => 'qlo', 'RcHm_v2.0_Chr1g0373671' => 'rch', 'RcHm_v2.0_Chr4g0403551' => 'rch', 'RcHm_v2.0_Chr5g0010751' => 'rch', 'RcHm_v2.0_Chr6g0306871' => 'rch', 'Rhsim01G0122700' => 'rsi', 'Rhsim02G0141300' => 'rsi', 'Rhsim03G0161400' => 'rsi', 'Rhsim03G0262900' => 'rsi', 'Rhsim06G0066800' => 'rsi', 'Rhsim09G0190000' => 'rsi', 'Sabra01G0056900' => 'sbr', 'Sabra02G0089200' => 'sbr', 'Sabra03G0109500' => 'sbr', 'Sabra18G0082200' => 'sbr', 'SalBow1G2790' => 'sbo', 'SalBow1G5219' => 'sbo', 'SalBow2G1923' => 'sbo', 'SalBow3G2373' => 'sbo', 'SalBow3G2769' => 'sbo', 'SalBow3G3070' => 'sbo', 'SalBow4G2795' => 'sbo', 'SalBow4G3201' => 'sbo', 'SalBow6G0511' => 'sbo', 'SalBow6G5585' => 'sbo', 'SalBow7G1880' => 'sbo', 'SalBow7G3655' => 'sbo', 'SalBow7G4547' => 'sbo', 'SalBow8G2183' => 'sbo', 'Sc05g0007120' => 'sci', 'Sc15g0005290' => 'sci', 'Sc18g0003400' => 'sci', 'Sc19g0002140' => 'sci', 'Sed0002843' => 'sed', 'Sed0003304' => 'sed', 'Sed0005448' => 'sed', 'Sed0008572' => 'sed', 'Sed0012036' => 'sed', 'Sed0012632' => 'sed', 'Sed0025613' => 'sed', 'Sed0026734' => 'sed', 'Sed0027619' => 'sed', 'SEGI_06144' => 'sgi', 'SEGI_24415' => 'sgi', 'SEGI_28488' => 'sgi', 'SGA_v2.0_scaffold1G00042' => 'sas', 'SGA_v2.0_scaffold28G11849' => 'sas', 'SGA_v2.0_scaffold44G16576' => 'sas', 'SGA_v2.0_scaffold60G20813' => 'sas', 'SGA_v2.0_scaffold63G21831' => 'sas', 'SHI15426' => 'shi', 'SMO143G0321' => 'smo', 'SMO169G0109' => 'smo', 'Solyc02g076870.4' => 'sly', 'Solyc03g093510.2' => 'sly', 'Solyc04g077180.3' => 'sly', 'Solyc05g052020.3' => 'sly', 'Solyc07g006690.3' => 'sly', 'Solyc11g020720.1' => 'sly', 'Sopen00g005810' => 'spe', 'Sopen00g005970' => 'spe', 'Sopen02g021770' => 'spe', 'Sopen03g024330' => 'spe', 'Sopen04g030780' => 'spe', 'Sopen05g030570' => 'spe', 'Sopen07g002790' => 'spe', 'Sopen11g010740' => 'spe', 'Sp1g08690' => 'spa', 'Sp1g25060' => 'spa', 'Sp6g13390' => 'spa', 'Sp7g23800' => 'spa', 'TAR374G1665' => 'tar', 'TAR375G0029' => 'tar', 'TAR381G1676' => 'tar', 'TAR383G0605' => 'tar', 'TAR625G1224' => 'tar', 'TAR628G1343' => 'tar', 'TAR629G2185' => 'tar', 'THA.LOC104811540' => 'tha', 'THA.LOC104811811' => 'tha', 'THA.LOC104814253' => 'tha', 'THA.LOC104816776' => 'tha', 'THA.LOC104820591' => 'tha', 'THA.LOC104825052' => 'tha', 'Thecc.03G148900' => 'tca', 'Thecc.06G171200' => 'tca', 'Thecc.08G081500' => 'tca', 'Thecc.09G167100' => 'tca', 'Thhalv10007805m.g' => 'esa', 'Thhalv10007940m.g' => 'esa', 'Thhalv10013958m.g' => 'esa', 'Thhalv10025307m.g' => 'esa', 'TPR.G11047' => 'tpr', 'TPR.G11701' => 'tpr', 'TPR.G12420' => 'tpr', 'TPR.G13529' => 'tpr', 'TPR.G19129' => 'tpr', 'TPR.G24184' => 'tpr', 'TPR.G24372' => 'tpr', 'TPR.G5294' => 'tpr', 'TPR.G9527' => 'tpr', 'TWI12G0428' => 'twi', 'TWI14G0311' => 'twi', 'TWI34G0927' => 'twi', 'TWI36G1272' => 'twi', 'TWI39G1024' => 'twi', 'TWI56G0285' => 'twi', 'unitig_0.g2510' => 'ugi', 'unitig_26.g9351' => 'ugi', 'unitig_578.g16164' => 'ugi', 'unitig_578.g16451' => 'ugi', 'unitig_578.g16616' => 'ugi', 'unitig_578.g16617' => 'ugi', 'unitig_699.g19364' => 'ugi', 'vmacro06029' => 'vma', 'vmacro06836' => 'vma', 'vmacro09920' => 'vma', 'vmacro15970' => 'vma', 'vmacro21397' => 'vma', 'VMungo0251G0287' => 'vmu', 'VMungo0720G1302' => 'vmu', 'VMungo1309G0383' => 'vmu', 'VMungo1309G2043' => 'vmu', 'Zm00001eb040870' => 'zma', 'Zm00001eb055910' => 'zma', 'Zm00001eb110360' => 'zma', 'Zm00001eb249360' => 'zma', 'Zm00001eb257330' => 'zma', 'Zm00001eb323750' => 'zma', 'Zm00001eb376650' => 'zma', 'Zm00001eb391760' => 'zma', 'Zm00001eb416540' => 'zma' ) $gf_id = 'HOM05D001006' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001006' ) $data_identifier = 'HOM05D001006' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 3, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 1, 'aly' => (int) 3, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 25, 'bol' => (int) 8, 'bra' => (int) 6, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'cbr' => (int) 1, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 7, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 7, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 6, 'lsa' => (int) 13, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 7, 'cme' => (int) 4, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 4, 'sbo' => (int) 14, 'sci' => (int) 4, 'sed' => (int) 9, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 8, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 4, 'tpr' => (int) 9, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb416540' $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